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Tm6sf1 transmembrane 6 superfamily member 1 [ Mus musculus (house mouse) ]

Gene ID: 107769, updated on 5-Mar-2024

Summary

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Official Symbol
Tm6sf1provided by MGI
Official Full Name
transmembrane 6 superfamily member 1provided by MGI
Primary source
MGI:MGI:1933209
See related
Ensembl:ENSMUSG00000038623 AllianceGenome:MGI:1933209
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
C630016D09Rik
Summary
Located in lysosomal membrane. Orthologous to human TM6SF1 (transmembrane 6 superfamily member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 19.2), spleen adult (RPKM 16.3) and 27 other tissues See more
Orthologs
human all
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Genomic context

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Location:
7 D3; 7 45.71 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (81507810..81533827)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (81858718..81884079)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene BTB domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_19371 Neighboring gene predicted gene, 32695 Neighboring gene predicted gene, 51491 Neighboring gene STARR-seq mESC enhancer starr_19372 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:89025770-89025983 Neighboring gene STARR-seq mESC enhancer starr_19373 Neighboring gene HDGF like 3 Neighboring gene STARR-seq mESC enhancer starr_19374 Neighboring gene STARR-seq mESC enhancer starr_19375 Neighboring gene basonuclin zinc finger protein 1 Neighboring gene STARR-seq mESC enhancer starr_19377 Neighboring gene predicted gene, 46013

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Transmembrane 6 superfamily 1 (Tm6sf1) is a novel lysosomal transmembrane protein. Tam WY, et al. Protoplasma, 2015 Jul. PMID 25422095
  2. Cloning of the novel gene TM6SF1 reveals conservation of clusters of paralogous genes between human chromosomes 15q24-->q26 and 19p13.3-->p12. Carim-Todd L, et al. Cytogenet Cell Genet, 2000. PMID 11124529
  3. DLK1 is a novel regulator of bone mass that mediates estrogen deficiency-induced bone loss in mice. Abdallah BM, et al. J Bone Miner Res, 2011 Jul. PMID 21308776
  4. Conserved molecular signatures of neurogenesis in the hippocampal subgranular zone of rodents and primates. Miller JA, et al. Development, 2013 Nov. PMID 24154525, Free PMC Article
  5. Transcriptome analysis of mouse stem cells and early embryos. Sharov AA, et al. PLoS Biol, 2003 Dec. PMID 14691545, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Clone Names

  • MGC25583

Gene Ontology Provided by MGI

Component Evidence Code Pubs
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in lysosomal membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in lysosome IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
transmembrane 6 superfamily member 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001291282.1 → NP_001278211.1  transmembrane 6 superfamily member 1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AK083132, AK136581, AK162572
    Consensus CDS
    CCDS80744.1
    UniProtKB/TrEMBL
    D3YX52
    Related
    ENSMUSP00000112400.2, ENSMUST00000119543.2
    Conserved Domains (1) summary
    pfam10914
    Location:126 → 262
    DUF2781; Protein of unknown function (DUF2781)

  2. NM_145375.4 → NP_663350.2  transmembrane 6 superfamily member 1 isoform 1

    See identical proteins and their annotated locations for NP_663350.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK083132, AK162572, BB653227
    Consensus CDS
    CCDS21408.1
    UniProtKB/Swiss-Prot
    P58749, Q8BUN7
    UniProtKB/TrEMBL
    Q3TA39
    Related
    ENSMUSP00000038017.2, ENSMUST00000041890.8
    Conserved Domains (1) summary
    cd21106
    Location:6 → 361
    TM6SF1-like; transmembrane 6 superfamily member 1, member 2, and similar proteins

RNA

  1. NR_111910.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two alternate exons compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK083132, AK162572, BB653227

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    81507810..81533827
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036152557.1 → XP_036008450.1  transmembrane 6 superfamily member 1 isoform X1

    UniProtKB/Swiss-Prot
    P58749, Q8BUN7
    UniProtKB/TrEMBL
    Q3TA39
    Conserved Domains (1) summary
    cd21106
    Location:6 → 361
    TM6SF1-like; transmembrane 6 superfamily member 1, member 2, and similar proteins

  2. XM_030241971.2 → XP_030097831.1  transmembrane 6 superfamily member 1 isoform X4

  3. XM_036152558.1 → XP_036008451.1  transmembrane 6 superfamily member 1 isoform X2

    Conserved Domains (1) summary
    cd21106
    Location:1 → 252
    TM6SF1-like; transmembrane 6 superfamily member 1, member 2, and similar proteins

  4. XM_030241970.1 → XP_030097830.1  transmembrane 6 superfamily member 1 isoform X3

    Conserved Domains (1) summary
    pfam10914
    Location:70 → 205
    DUF2781; Protein of unknown function (DUF2781)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P58749.2 GenPept UniProtKB/Swiss-Prot:P58749

Gene LinkOut

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